Locus 4526

Sequence ID	3R_DroMel_CAF1
Location	12,019,148 – 12,019,266
Length	118
Max. P	0.995245

overview

Window 7

Location	12,019,148 – 12,019,266
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.56
Mean single sequence MFE	-33.60
Consensus MFE	-29.06
Energy contribution	-29.82
Covariance contribution	0.76
Combinations/Pair	1.12
Mean z-score	-2.17
Structure conservation index	0.86
SVM decision value	2.56
SVM RNA-class probability	0.995245
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12019148 118 + 27905053
ACAUGAAUUUGUU-UAUAUCCCUUUGUUGCUGAUUUUU-UUUUGAGUGGCCCACUGAAGCCGUCUCAAAUGAUUUAGAGAGCUUUUGCGUGUCUUUGAGGUGGCUUACAUGCGGGCUACU
....(((((.((.-.(((......))).)).)))))..-.....((((((((.((((((((..((((((.(((.......((....))..)))))))))..))))).)).).)))))))) ( -36.50)
>DroSec_CAF1 124022 117 + 1
ACACAAAUUUGUU-UAUAUCCCAUUGUUGCUGAUUUU--UUUUGAGUGGCCCACUGAAGCUGUCUCAAAUGAUUUAGAGAGCUUUUGCGUGUCUUUGAGGUGGCUUACAUGCGGGCUACU
....(((((.((.-.(((......))).)).))))).--.....((((((((.(((((((..(((((((.(((.......((....))..))))))))))..)))).)).).)))))))) ( -35.10)
>DroSim_CAF1 124321 119 + 1
ACACAAAUUUGUU-UAUAUCCCUUUGUUGCUGAUUUUUUUUUUGAGUGGCCCACUGAAGCCGUCUCAAAUGAUUUAGAGAGCUUUUGCGUGUCUUUGAGGUGGCUUACAUGCGGGCUACU
....(((((.((.-.(((......))).)).)))))........((((((((.((((((((..((((((.(((.......((....))..)))))))))..))))).)).).)))))))) ( -36.20)
>DroEre_CAF1 123842 117 + 1
ACACAUAUUUGUU-UACAUCCUUUUGUUGCUGAUUUU--UUUUGAGUGGCCCAAGGAUGCCGUCUAAAAUGAUUUAAAGAGCUUUUGCGUGUCUUUGAGGUGGCUUACAUGCGGGCUACU
...(((.((.(..-..(((((((..((..((.(....--...).))..))..)))))))....).)).))).((((((((((....))...))))))))(((((((......))))))). ( -28.50)
>DroYak_CAF1 127073 116 + 1
AAACAAAUAUGUUUUUUAUCCCUUUGUUGCUGGUUU----UUUGAGUGGCCCAAGGAUGCCGUCUAAAAUGAUAUAAAGAGCUUUUGCGUGUCUUUGAGGUGGCUUACAUGCGGGCUACU
(((((....)))))...........((.(((.((..----..(((((.((((((((((((.(((......))).......((....))))))))))).))).)))))...)).))).)). ( -31.70)
>consensus
ACACAAAUUUGUU_UAUAUCCCUUUGUUGCUGAUUUU__UUUUGAGUGGCCCACUGAAGCCGUCUCAAAUGAUUUAGAGAGCUUUUGCGUGUCUUUGAGGUGGCUUACAUGCGGGCUACU
....(((((.((...(((......))).)).)))))........((((((((....(((((..((((((.(((.......((....))..)))))))))..)))))......)))))))) (-29.06 = -29.82 +   0.76)

alignment

secondary structure

dotplot

Window 8

Location	12,019,148 – 12,019,266
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.56
Mean single sequence MFE	-23.65
Consensus MFE	-18.30
Energy contribution	-20.10
Covariance contribution	1.80
Combinations/Pair	1.00
Mean z-score	-1.55
Structure conservation index	0.77
SVM decision value	0.12
SVM RNA-class probability	0.591890
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12019148 118 - 27905053
AGUAGCCCGCAUGUAAGCCACCUCAAAGACACGCAAAAGCUCUCUAAAUCAUUUGAGACGGCUUCAGUGGGCCACUCAAAA-AAAAAUCAGCAACAAAGGGAUAUA-AACAAAUUCAUGU
(((.((((((.((.(((((..((((((((...((....))..))).......)))))..))))))))))))).))).....-...........(((...((((...-.....)))).))) ( -27.61)
>DroSec_CAF1 124022 117 - 1
AGUAGCCCGCAUGUAAGCCACCUCAAAGACACGCAAAAGCUCUCUAAAUCAUUUGAGACAGCUUCAGUGGGCCACUCAAAA--AAAAUCAGCAACAAUGGGAUAUA-AACAAAUUUGUGU
(((.((((((.((.((((...((((((((...((....))..))).......)))))...)))))))))))).))).....--..................(((((-((....))))))) ( -23.81)
>DroSim_CAF1 124321 119 - 1
AGUAGCCCGCAUGUAAGCCACCUCAAAGACACGCAAAAGCUCUCUAAAUCAUUUGAGACGGCUUCAGUGGGCCACUCAAAAAAAAAAUCAGCAACAAAGGGAUAUA-AACAAAUUUGUGU
(((.((((((.((.(((((..((((((((...((....))..))).......)))))..))))))))))))).)))..............(((.((((.(......-..)...))))))) ( -29.31)
>DroEre_CAF1 123842 117 - 1
AGUAGCCCGCAUGUAAGCCACCUCAAAGACACGCAAAAGCUCUUUAAAUCAUUUUAGACGGCAUCCUUGGGCCACUCAAAA--AAAAUCAGCAACAAAAGGAUGUA-AACAAAUAUGUGU
.......(((((((..(((.............((....))..((((((....)))))).)))((((((..((.........--.......)).....))))))...-.....))))))). ( -19.19)
>DroYak_CAF1 127073 116 - 1
AGUAGCCCGCAUGUAAGCCACCUCAAAGACACGCAAAAGCUCUUUAUAUCAUUUUAGACGGCAUCCUUGGGCCACUCAAA----AAACCAGCAACAAAGGGAUAAAAAACAUAUUUGUUU
(((.((((((.(((..............))).))....(((.((((........)))).)))......)))).)))....----........((((((.(.........)...)))))). ( -18.34)
>consensus
AGUAGCCCGCAUGUAAGCCACCUCAAAGACACGCAAAAGCUCUCUAAAUCAUUUGAGACGGCUUCAGUGGGCCACUCAAAA__AAAAUCAGCAACAAAGGGAUAUA_AACAAAUUUGUGU
(((.((((((.((.(((((..((((((((...((....))........)).))))))..))))))))))))).)))............................................ (-18.30 = -20.10 +   1.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:25 2006